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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaggattaatttgagctgtgaagttgatattattttattccacaacatgttttcaatatatttgttaattatcttcaagctctgactacatgttccattaataatttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAGGTGCTCTTGTGGAAGGAGCATGGCCTCTAGGCAGTGCCATAGAAGCCAT

Basic information

species Glycine max
transcript GLYMA16G04760.1
intron # 8
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|9984608|gb|BE658716.1|BE658716
EST:     CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTG                         GCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
genomic: CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTGgtaggattaa ... ttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
EST: gi|6227837|gb|AW156436.1|AW156436
EST:     CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTG                         GCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
genomic: CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTGgtaggattaa ... ttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
EST: gi|16349242|gb|BI974837.1|BI974837
EST:     CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTG                         GCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
genomic: CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTGgtaggattaa ... ttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
EST: gi|31474171|gb|CD416199.1|CD416199
EST:     CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTG                         GCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
genomic: CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTGgtaggattaa ... ttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
EST: gi|20207871|gb|BQ133960.1|BQ133960
EST:     CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTG                         GCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
genomic: CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTGgtaggattaa ... ttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
EST: gi|214009522|gb|DB990108.1|DB990108
EST:     CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTG                         GCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
genomic: CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTGgtaggattaa ... ttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
EST: gi|213594114|gb|DB981414.1|DB981414
EST:     CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTG                         GCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
genomic: CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTGgtaggattaa ... ttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
EST: gi|31460932|gb|CD402960.1|CD402960
EST:     CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTG                         GCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG
genomic: CATTTGCATGGATATTACGTATCAGTATACGTTGCTCGTCGATGGATTTGgtaggattaa ... ttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAG


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

tttgttaattatcttcaagctctgactacatgttccattaataatttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAGGTGCTCTTGTGGAAGGAGCATGGCCTCTAGGCAGTGCCATAGAAGCCAT
                                   cattaat  putative branch site (score: 3)
                                    attaataatttgtt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaggattaatttgagctgtgaagttgatattattttattccacaacatgttttcaatatatttgttaattatcttcaagctctgactacatgttccattaataatttgttggcagGCCTGGATCCTTGGAAAGAGATTATAGTAGCAAATGAAATTGAATACCAAGGTGCTCTTGTGGAAGGAGCATGGCCTCTAGGCAGTGCCATAGAAGCCAT

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - TGGAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGGAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  GGAGCA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGAAGC